4Z45

Structure of OBP3 from the currant-lettuce aphid Nasonovia ribisnigri

Summary for 4Z45

• Entry DOI: 10.2210/pdb4z45/pdb
• Related: 4Z39
• Descriptor: Odorant-binding protein NribOBP3 (2 entities in total)
• Functional Keywords: odorant binding protein
• Biological source: Nasonovia ribisnigri (lettuce aphid)
• Total number of polymer chains: 3
• Total formula weight: 40936.74

Authors

Northey, T.,Venthur, H.,De Biasio, F.,Chauviac, F.-X.,Cole, A.R.,Field, L.M.,Zhou, J.-J.,Keep, N.H. (deposition date: 2015-04-01, release date: 2016-04-13, Last modification date: 2024-11-20)

Primary citation

Northey, T.,Venthur, H.,De Biasio, F.,Chauviac, F.X.,Cole, A.,Ribeiro, K.A.,Grossi, G.,Falabella, P.,Field, L.M.,Keep, N.H.,Zhou, J.J.
Crystal Structures and Binding Dynamics of Odorant-Binding Protein 3 from two aphid species Megoura viciae and Nasonovia ribisnigri.
Sci Rep, 6:24739-24739, 2016

PubMed Abstract: Aphids use chemical cues to locate hosts and find mates. The vetch aphid Megoura viciae feeds exclusively on the Fabaceae, whereas the currant-lettuce aphid Nasonovia ribisnigri alternates hosts between the Grossulariaceae and Asteraceae. Both species use alarm pheromones to warn of dangers. For N. ribisnigri this pheromone is a single component (E)-β-farnesene but M. viciae uses a mixture of (E)-β-farnesene, (-)-α-pinene, β-pinene, and limonene. Odorant-binding proteins (OBP) are believed to capture and transport such semiochemicals to their receptors. Here, we report the first aphid OBP crystal structures and examine their molecular interactions with the alarm pheromone components. Our study reveals some unique structural features: 1) the lack of an internal ligand binding site; 2) a striking groove in the surface of the proteins as a putative binding site; 3) the N-terminus rather than the C-terminus occupies the site closing off the conventional OBP pocket. The results from fluorescent binding assays, molecular docking and dynamics demonstrate that OBP3 from M. viciae can bind to all four alarm pheromone components and the differential ligand binding between these very similar OBP3s from the two aphid species is determined mainly by the direct π-π interactions between ligands and the aromatic residues of OBP3s in the binding pocket.

PubMed: 27102935
DOI: 10.1038/srep24739

Experimental method

X-RAY DIFFRACTION (2.02 Å)